Complex implant treatments have steadily increased within implant prosthodontics. Based on the lower implant mobility, implant impressions need high accuracy in the model transfer to receive a high passive fit within the final prosthodontic restoration. To analyze the accurate 3-dimensional (3D) inter-implant-positions, a reference point is indispensable. However, there is no reference in the patients mouth, so the aim of the present study was to develop a new method based on a custom-made-measuring-aid (CMA) to assess the inter implant dimensions (InID) in patients. Initially an implant master model (IMM/patient equivalent) was digitized by computed tomography. A CMA was fixed on the impression posts and the inter implant dimensions (InID) were recorded with a coordinate measurement machine (CMM). For comparison to conventional and digital impression techniques, 10 impressions per technique were taken. InIDs for the IMM, the CMA and the two impression techniques were compared. To give a proof of principle, the new 3D-method was applied to three patients as pilot cases. Results for trueness and precision were analyzed by pairwise comparisons (p< .05). All data were subjected to univariate ANOVA. Mean deviation for InID ranged from 10.3±18?m(CMA) to 41.7±36?m(conventional). There were partially significant differences for InID between the CMA and the different impression techniques. There were no significant differences for InID within the CMA. The InID in the in-vivo evaluation ranged from 42.3?m to 376.7?m(digital) and from 58.3?m to 274.0?m(conventional). There were partially significant differences between the techniques. Within the limits of this study, with the developed method using a CMA it is possible to assess the true 3D-InID with a decisive higher accuracy than possible with a conventional or digital implant impression. Overall, the CMA in this study generated results that were deemed clinically useful for the investigated inter implant positions.